ArticlemBio2019
Gene Regulation Shifts Shed Light on Fungal Adaption in Plant Biomass Decomposers.
Article in mBio, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
29 citing papers in PubMed, 58 citations in OpenAlex.
- Reintroduction of lignin-modifying enzymes in the brown-rot fungus Gloeophyllum trabeum restores ligninolytic activities but diminishes lignocellulose degradation.Fungal biology and biotechnology · 2026Article
- A single-domain expansin-like protein fromProceedings of the National Academy of Sciences of the United States of America · 2026Article
- The oleaginous yeast Cutaneotrichosporon oleaginosum modifies corn stover alkali lignin.Scientific reports · 2026Article
- Detailed Characterization of the Conversion of Hardwood and Softwood Lignin by a Brown-Rot Basidiomycete.Biomacromolecules · 2025Article
- Effects of global change drivers on the expression of pathogenicity and stress genes in dryland soil fungi.mSphere · 2024Article
- Unlocking the distinctive enzymatic functions of the early plant biomass deconstructive genes in a brown rot fungus by cell-free protein expression.Applied and environmental microbiology · 2024Article
- Pleurotus ostreatus as a model mushroom in genetics, cell biology, and material sciences.Applied microbiology and biotechnology · 2024Review
- A Laccase Gene Reporting System That Enables Genetic Manipulations in a Brown Rot Wood Decomposer FungusMicrobiology spectrum · 2023Article
- Tracking fungal species-level responses in soil environments exposed to long-term warming and associated drying.FEMS microbiology letters · 2023Article
- Comparative analysis of simulatedFrontiers in microbiology · 2023Article
- Metabolomics Highlights Different Life History Strategies of White and Brown Rot Wood-Degrading Fungi.mSphere · 2022Article
- Lignocellulose dissociation with biological pretreatment towards the biochemical platform: A review.Materials today. Bio · 2022Review
- Comparative Analysis ofInternational journal of molecular sciences · 2022Article
- Article
- Capturing an Early Gene Induction Event during Wood Decay by the Brown Rot FungusApplied and environmental microbiology · 2022Article
- Structural and functional changes in the fungal community of plant detritus in an invaded Atlantic Forest.BMC microbiology · 2022Article
- Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay.Environmental microbiology · 2021Article
- Article
- Using MALDI-FTICR-MS Imaging to Track Low-Molecular-Weight Aromatic Derivatives of Fungal Decayed Wood.Journal of fungi (Basel, Switzerland) · 2021Article
- Evolution of Fungal Carbohydrate-Active Enzyme Portfolios and Adaptation to Plant Cell-Wall Polymers.Journal of fungi (Basel, Switzerland) · 2021Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Fungi dominate the recycling of carbon sequestered in woody biomass. This process of organic turnover was first evolved among "white rot" fungi that degrade lignin to access carbohydrates and later evolved multiple times toward more efficient strategies to selectively target carbohydrates-"brown rot." The brown rot adaption was often explained by mechanisms to deploy reactive oxygen species (ROS) to oxidatively attack wood structures. However, its genetic basis remains unclear, especially in the context of gene contractions of conventional carbohydrate-active enzymes (CAZYs) relative to white rot ancestors. Here, we hypothesized that these apparent gains in brown rot efficiency despite gene losses were due, in part, to upregulation of the retained genes. We applied comparative transcriptomics to multiple species of both rot types grown across a wood wafer to create a gradient of progressive decay and to enable tracking temporal gene expression. Dozens of "decay-stage-dependent" ortho-genes were isolated, narrowing a pool of candidate genes with time-dependent regulation unique to brown rot fungi. A broad comparison of the expression timing of CAZY families indicated a temporal regulatory shift of lignocellulose-oxidizing genes toward early stages in brown rot compared to white rot, enabling the segregation of oxidative treatment ahead of hydrolysis. These key brown rot ROS-generating genes with iron ion binding functions were isolated. Moreover, transcription energy was shifted to be invested on the retained GHs in brown rot fungi to strengthen carbohydrate conversion. Collectively, these results support the hypothesis that gene regulation shifts played a pivotal role in brown rot adaptation.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.